List of works - Satoshi Murakami

A crystallization technique for obtaining large protein crystals with increased mechanical stability using agarose gel combined with a stirring technique

Application of femtosecond laser ablation for detaching grown protein crystals from glass capillary tube

scientific article

Approach for growth of high-quality and large protein crystals

scientific article published on 5 November 2010

Atomic-Scale Imaging of Surface and Hydration Structures of Stable and Metastable Acetaminophen Crystals by Frequency Modulation Atomic Force Microscopy

BpeB, a major resistance-nodulation-cell division transporter from Burkholderia cenocepacia: construct design, crystallization and preliminary structural analysis

article published in 2018

Comparison of the envelope architecture of E. coli using two methods: CEMOVIS and cryo-electron tomography

scientific article

Conformational plasticity of RNA for target recognition as revealed by the 2.15 A crystal structure of a human IgG-aptamer complex

scientific article

Cooling-rate screening system for determining protein crystal growth conditions

Crystal Growth Procedure of HIV-1 Protease-Inhibitor KNI-272 Complex for Neutron Structural Analysis at 1.9 Å Resolution

article

Crystal Structure of Bacterial Multi-Drug Efflux Transporter AcrB

Crystal Structure of a Multi-Drug Efflux Transporter Reveal a Functionally Rotating Mechanism

Crystal structure of AcrB complexed with linezolid at 3.5 Å resolution

scientific article

Crystal structure of bacterial multidrug efflux transporter AcrB

scientific article

Crystal structure of the DsbB-DsbA complex reveals a mechanism of disulfide bond generation.

scientific article

Crystal structure of tripartite-type ABC transporter MacB from Acinetobacter baumannii

scientific article published on 6 November 2017

Crystal structures of a multidrug transporter reveal a functionally rotating mechanism.

scientific article

Crystallization and preliminary X-ray analysis of the tRNA thiolation enzyme MnmA from Escherichia coli complexed with tRNA(Glu).

scientific article published on 10 March 2006

Crystallization and preliminary X-ray crystallographic analysis of Ca2+-free primary Ca2+-sensor of Na+/Ca2+ exchanger

scientific article published on 28 November 2008

Crystallization and preliminary X-ray diffraction studies of an RNA aptamer in complex with the human IgG Fc fragment

scientific article published on 30 September 2008

Crystallization and preliminary crystallographic analysis of orotidine 5'-monophosphate decarboxylase from the human malaria parasite Plasmodium falciparum

scientific article

Crystallization and preliminary neutron diffraction studies of HIV-1 protease cocrystallized with inhibitor KNI-272.

scientific article published on 25 October 2008

Crystallization of acetaminophen form II by plastic-ball-assisted ultrasonic irradiation

Development of protein crystallization and processing: femtosecond laser, all solid-state 193 nm laser, and solution stirring techniques

article

Development of protein seed crystals reinforced with high-strength hydrogels

article

Direct interaction of multidrug efflux transporter AcrB and outer membrane channel TolC detected via site-directed disulfide cross-linking

scientific article published in August 2005

Drug export and allosteric coupling in a multidrug transporter revealed by molecular simulations

scientific article

Drug uptake pathways of multidrug transporter AcrB studied by molecular simulations and site-directed mutagenesis experiments

scientific article published on 14 May 2013

Dynamic nature of disulphide bond formation catalysts revealed by crystal structures of DsbB

scientific article

Effect of Laser Irradiation on Enzyme Activity

Energetics and conformational pathways of functional rotation in the multidrug transporter AcrB.

scientific article

Estimated effects of silicone glue on protein crystal growth

article

Extramembrane central pore of multidrug exporter AcrB in Escherichia coli plays an important role in drug transport

scientific article published on 23 October 2003

Functional role of transmembrane helix 6 in drug binding and transport by the ABC transporter MsbA.

scientific article

Functional rotation induced by alternating protonation states in the multidrug transporter AcrB: all-atom molecular dynamics simulations.

scientific article

Growth of Protein Crystals in Hydrogels with High Strength

Growth of high-quality metastable crystal of acetaminophen using solution-mediated phase transformation at low supersaturation

Improvement of metastable crystal of acetaminophen via control of crystal growth rate

article published in 2018

Introduction: Applications

Laser ablation for protein crystal nucleation and seeding

scientific article

Metastable crystal growth of acetaminophen using solution-mediated phase transformation

Molecular Mechanism of Multi-drug Efflux Transporter, AcrB Revealed by the Synergy between Molecular Dynamics Simulation and Crystallography

article

Molecular mechanism underlying promiscuous polyamine recognition by spermidine acetyltransferase

scientific article

Molecular resolution investigation of tetragonal lysozyme (110) face in liquid by frequency-modulation atomic force microscopy

article published in 2010

Multidrug efflux transporter, AcrB--the pumping mechanism

scientific article published on 09 August 2008

Mutation of the Mg2+ transporter SLC41A1 results in a nephronophthisis-like phenotype

scientific journal article

New progress in crystallization technology of membrane protein and introduction of pharamaceutical innovation value chain

scientific article

Powering the ABC multidrug exporter LmrA: How nucleotides embrace the ion-motive force

scientific article published on 19 September 2018

Preliminary X-ray analysis of the binding domain of the soybean vacuolar sorting receptor complexed with a sorting determinant of a seed storage protein

scientific article published on 28 January 2015

Processing of membrane protein crystal using ultraviolet laser irradiation

scientific article

Promotion of protein crystal growth by actively switching crystal growth mode via femtosecond laser ablation

Protein Cryocrystallography Using Laser-Processed Crystal

Protein crystallization in a 100 nl solution with new stirring equipment

scientific article published on 18 April 2008

Purification, crystallization and preliminary X-ray diffraction of SecDF, a translocon-associated membrane protein, from Thermus thermophilus

scientific article

Solution-stirring method improves crystal quality of human triosephosphate isomerase

Spiral Growth Can Enhance Both the Normal Growth Rate and Quality of Tetragonal Lysozyme Crystals Grown under a Forced Solution Flow

Structural and functional diversity calls for a new classification of ABC transporters

scientific article published on 26 September 2020

Structure and function relationship of OqxB efflux pump from Klebsiella pneumoniae

scientific article published on 13 September 2021

Structure of the MacAB-TolC ABC-type tripartite multidrug efflux pump.

scientific article published on 15 May 2017

Structure of the human-heart fatty-acid-binding protein 3 in complex with the fluorescent probe 1-anilinonaphthalene-8-sulphonic acid

scientific article

Structure of the γ–ε complex of cyanobacterial F1-ATPase reveals a suppression mechanism of the γ subunit on ATP hydrolysis in phototrophs

scientific article published on 18 September 2018

Structure, mechanism and cooperation of bacterial multidrug transporters

scientific article

The Trial of Drug Discovery using the In-Silico Screening Methods Developed by Pharmaceutical Innovation Value Chain

article

Tripartite transporters as mechano-transmitters in periplasmic alternating-access mechanisms

scientific article published on 16 September 2020

Water-mediated recognition of simple alkyl chains by heart-type fatty-acid-binding protein

scientific article published on 9 December 2014

β-Lactam selectivity of multidrug transporters AcrB and AcrD resides in the proximal binding pocket

scientific article

List of works by Satoshi Murakami

A crystallization technique for obtaining large protein crystals with increased mechanical stability using agarose gel combined with a stirring technique

Application of femtosecond laser ablation for detaching grown protein crystals from glass capillary tube

Approach for growth of high-quality and large protein crystals

Atomic-Scale Imaging of Surface and Hydration Structures of Stable and Metastable Acetaminophen Crystals by Frequency Modulation Atomic Force Microscopy

BpeB, a major resistance-nodulation-cell division transporter from Burkholderia cenocepacia: construct design, crystallization and preliminary structural analysis

Comparison of the envelope architecture of E. coli using two methods: CEMOVIS and cryo-electron tomography

Conformational plasticity of RNA for target recognition as revealed by the 2.15 A crystal structure of a human IgG-aptamer complex

Cooling-rate screening system for determining protein crystal growth conditions

Crystal Growth Procedure of HIV-1 Protease-Inhibitor KNI-272 Complex for Neutron Structural Analysis at 1.9 Å Resolution

Crystal Structure of Bacterial Multi-Drug Efflux Transporter AcrB

Crystal Structure of a Multi-Drug Efflux Transporter Reveal a Functionally Rotating Mechanism

Crystal structure of AcrB complexed with linezolid at 3.5 Å resolution

Crystal structure of bacterial multidrug efflux transporter AcrB

Crystal structure of the DsbB-DsbA complex reveals a mechanism of disulfide bond generation.

Crystal structure of tripartite-type ABC transporter MacB from Acinetobacter baumannii

Crystal structures of a multidrug transporter reveal a functionally rotating mechanism.

Crystallization and preliminary X-ray analysis of the tRNA thiolation enzyme MnmA from Escherichia coli complexed with tRNA(Glu).

Crystallization and preliminary X-ray crystallographic analysis of Ca2+-free primary Ca2+-sensor of Na+/Ca2+ exchanger

Crystallization and preliminary X-ray diffraction studies of an RNA aptamer in complex with the human IgG Fc fragment

Crystallization and preliminary crystallographic analysis of orotidine 5'-monophosphate decarboxylase from the human malaria parasite Plasmodium falciparum

Crystallization and preliminary neutron diffraction studies of HIV-1 protease cocrystallized with inhibitor KNI-272.

Crystallization of acetaminophen form II by plastic-ball-assisted ultrasonic irradiation

Development of protein crystallization and processing: femtosecond laser, all solid-state 193 nm laser, and solution stirring techniques

Development of protein seed crystals reinforced with high-strength hydrogels

Direct interaction of multidrug efflux transporter AcrB and outer membrane channel TolC detected via site-directed disulfide cross-linking

Drug export and allosteric coupling in a multidrug transporter revealed by molecular simulations

Drug uptake pathways of multidrug transporter AcrB studied by molecular simulations and site-directed mutagenesis experiments

Dynamic nature of disulphide bond formation catalysts revealed by crystal structures of DsbB

Effect of Laser Irradiation on Enzyme Activity

Energetics and conformational pathways of functional rotation in the multidrug transporter AcrB.

Estimated effects of silicone glue on protein crystal growth

Extramembrane central pore of multidrug exporter AcrB in Escherichia coli plays an important role in drug transport

Functional role of transmembrane helix 6 in drug binding and transport by the ABC transporter MsbA.

Functional rotation induced by alternating protonation states in the multidrug transporter AcrB: all-atom molecular dynamics simulations.

Growth of Protein Crystals in Hydrogels with High Strength

Growth of high-quality metastable crystal of acetaminophen using solution-mediated phase transformation at low supersaturation

Improvement of metastable crystal of acetaminophen via control of crystal growth rate

Introduction: Applications

Laser ablation for protein crystal nucleation and seeding

Metastable crystal growth of acetaminophen using solution-mediated phase transformation

Molecular Mechanism of Multi-drug Efflux Transporter, AcrB Revealed by the Synergy between Molecular Dynamics Simulation and Crystallography

Molecular mechanism underlying promiscuous polyamine recognition by spermidine acetyltransferase

Molecular resolution investigation of tetragonal lysozyme (110) face in liquid by frequency-modulation atomic force microscopy

Multidrug efflux transporter, AcrB--the pumping mechanism

Mutation of the Mg2+ transporter SLC41A1 results in a nephronophthisis-like phenotype

New progress in crystallization technology of membrane protein and introduction of pharamaceutical innovation value chain

Powering the ABC multidrug exporter LmrA: How nucleotides embrace the ion-motive force

Preliminary X-ray analysis of the binding domain of the soybean vacuolar sorting receptor complexed with a sorting determinant of a seed storage protein

Processing of membrane protein crystal using ultraviolet laser irradiation

Promotion of protein crystal growth by actively switching crystal growth mode via femtosecond laser ablation

Protein Cryocrystallography Using Laser-Processed Crystal

Protein crystallization in a 100 nl solution with new stirring equipment

Purification, crystallization and preliminary X-ray diffraction of SecDF, a translocon-associated membrane protein, from Thermus thermophilus

Solution-stirring method improves crystal quality of human triosephosphate isomerase

Spiral Growth Can Enhance Both the Normal Growth Rate and Quality of Tetragonal Lysozyme Crystals Grown under a Forced Solution Flow

Structural and functional diversity calls for a new classification of ABC transporters

Structure and function relationship of OqxB efflux pump from Klebsiella pneumoniae

Structure of the MacAB-TolC ABC-type tripartite multidrug efflux pump.

Structure of the human-heart fatty-acid-binding protein 3 in complex with the fluorescent probe 1-anilinonaphthalene-8-sulphonic acid

Structure of the γ–ε complex of cyanobacterial F1-ATPase reveals a suppression mechanism of the γ subunit on ATP hydrolysis in phototrophs

Structure, mechanism and cooperation of bacterial multidrug transporters

The Trial of Drug Discovery using the In-Silico Screening Methods Developed by Pharmaceutical Innovation Value Chain

Tripartite transporters as mechano-transmitters in periplasmic alternating-access mechanisms

Water-mediated recognition of simple alkyl chains by heart-type fatty-acid-binding protein

β-Lactam selectivity of multidrug transporters AcrB and AcrD resides in the proximal binding pocket